Sequencing and analysis of approximately 40,000 soybean cDNA clones from a full-length-enriched cDNA library.
A large collection of full-length cDNAs is essential for the correct annotation of genomic sequences and for the functional analysis of genes and their products. We obtained a total of 39,936 soybean cDNA clones (GMFL01 and GMFL02 clone sets) in a full-length-enriched cDNA library which was constructed from soybean plants that were grown under various developmental and environmental conditions. Sequencing from 5' and 3' ends of the clones generated 68 661 expressed sequence tags (ESTs). The EST sequences were clustered into 22,674 scaffolds involving 2580 full-length sequences. In addition, we sequenced 4712 full-length cDNAs. After removing overlaps, we obtained 6570 new full-length sequences of soybean cDNAs so far. Our data indicated that 87.7% of the soybean cDNA clones contain complete coding sequences in addition to 5'- and 3'-untranslated regions. All of the obtained data confirmed that our collection of soybean full-length cDNAs covers a wide variety of genes. Comparative analysis between the derived sequences from soybean and Arabidopsis, rice or other legumes data revealed that some specific genes were involved in our collection and a large part of them could be annotated to unknown functions. A large set of soybean full-length cDNA clones reported in this study will serve as a useful resource for gene discovery from soybean and will also aid a precise annotation of the soybean genome.
Umezawa
Taishi
T
Gene Discovery Research Team, RIKEN Plant Science Center, Koyadai 3-1-1, Tsukuba, Ibaraki 305-0074, Japan.
Sakurai
Tetsuya
T
Totoki
Yasushi
Y
Toyoda
Atsushi
A
Seki
Motoaki
M
Ishiwata
Atsushi
A
Akiyama
Kenji
K
Kurotani
Atsushi
A
Yoshida
Takuhiro
T
Mochida
Keiichi
K
Kasuga
Mie
M
Todaka
Daisuke
D
Maruyama
Kyonoshin
K
Nakashima
Kazuo
K
Enju
Akiko
A
Mizukado
Saho
S
Ahmed
Selina
S
Yoshiwara
Kyoko
K
Harada
Kyuya
K
Tsubokura
Yasutaka
Y
Hayashi
Masaki
M
Sato
Shusei
S
Anai
Toyoaki
T
Ishimoto
Masao
M
Funatsuki
Hideyuki
H
Teraishi
Masayoshi
M
Osaki
Mitsuru
M
Shinano
Takuro
T
Akashi
Ryo
R
Sakaki
Yoshiyuki
Y
Yamaguchi-Shinozaki
Kazuko
K
Shinozaki
Kazuo
K
D000818:Animals; D003001:Cloning, Molecular; D018076:DNA, Complementary; D020224:Expressed Sequence Tags / Q000737:chemistry; D020869:Gene Expression Profiling; D018506:Gene Expression Regulation, Plant; D015723:Gene Library; D018745:Genome, Plant; D008969:Molecular Sequence Data; D009348:Nematoda / Q000502:physiology; D010935:Plant Diseases / Q000469:parasitology; D017422:Sequence Analysis, DNA; D013025:Glycine max / Q000235:genetics / Q000254:growth & development / Q000469:parasitology / Q000502:physiology
D018076:DNA, Complementary